Fig. 2

Overabundant and depleted gut microbiome taxa in IgG4-RD and SSc. a Relative abundances of the five most abundant phyla in the disease and control cohorts. b Differentially abundant phyla in at least one of the disease cohorts when compared to the controls (FDR < 0.2). Boxplots show median and lower/upper quartiles; whiskers show inner fences. c Top 30 differentially abundant species in IgG4-RD and/or SSc when compared to the controls (*FDR < 0.05). See also Additional file 1: Table S4. d The number of overabundant or depleted species from each phylum in the disease cohorts. In total, 19 overabundant and 19 depleted species were common to both IgG4-RD and SSc; no discordant species (i.e., overabundant in one disease and depleted in the other) were identified. Panels a, c, and d use the same color scheme to represent phyla